3D structure

PDB id
6D9J (explore in PDB, NAKB, or RNA 3D Hub)
Description
Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.
Experimental method
ELECTRON MICROSCOPY
Resolution
3.2 Å

Loop

Sequence
UUGAAAAGAAC*GAGUUCAAGAGGGCG*CA
Length
28 nucleotides
Bulged bases
6D9J|1|5|G|409, 6D9J|1|5|G|413
QA status
Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.
R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
R3DMCS Rfam
J3_6D9J_033 not in the Motif Atlas
Homologous match to J3_8P9A_047
Geometric discrepancy: 0.3427
The information below is about J3_8P9A_047
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_92134.2
Basepair signature
cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW
Number of instances in this motif group
6

Unit IDs

6D9J|1|5|U|380
6D9J|1|5|U|381
6D9J|1|5|G|382
6D9J|1|5|A|383
6D9J|1|5|A|384
6D9J|1|5|A|385
6D9J|1|5|A|386
6D9J|1|5|G|387
6D9J|1|5|A|388
6D9J|1|5|A|389
6D9J|1|5|C|390
*
6D9J|1|5|G|401
6D9J|1|5|A|402
6D9J|1|5|G|403
6D9J|1|5|U|404
6D9J|1|5|U|405
6D9J|1|5|C|406
6D9J|1|5|A|407
6D9J|1|5|A|408
6D9J|1|5|G|409
6D9J|1|5|A|410
6D9J|1|5|G|411
6D9J|1|5|G|412
6D9J|1|5|G|413
6D9J|1|5|C|414
6D9J|1|5|G|415
*
6D9J|1|8|C|19
6D9J|1|8|A|20

Current chains

Chain 5
28S rRNA
Chain 8
5.8S rRNA

Nearby chains

Chain C
uL4
Chain P
uL22
Chain Y
uL24
Chain l
eL39

Coloring options:


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